TABLE 1.

Allelic associations between the CFA16 microsatellite and SNP markers

	Distance (Mb)a	No. of alleles	Frequency of associated alleleb (no. of individuals)		Odds (C.I. of 95%)c
Marker						Normal	PPD		χ2 (1)d	P-value	Pc valuee
REN85M08	21.1	7	0/48 (24)	17/42 (21)	—	23.95	9.87 × 10−7	6.91 × 10−6
ShotR2	21.2	2	21/48 (24)	41/44 (22)	10.63 (2.51 45.06)	16.24	5.58 × 10−5
REN124F19	49.6	6	13/26 (23)	17/42 (19)	2.05 (0.81 5.18)	2.46	0.12	0.72

^aDistances were based on the canine genome database (May 2005 for Boxer, http://genome.ucsc.edu).

^bFrequencies of highly associated alleles are presented as the number of a particular allele among the number of all alleles. In microsatellite analysis, P-values were obtained for all combinations, each with a particular allele versus the other alleles combined. Only the P-value for the most highly associated allele is shown. Individuals were selected from nine breeds (details in supplemental Table 3S).

^cC.I. denotes the confidence interval. The odds ratio for REN85M08 could not be estimated due to the lack of PPD-associated alleles in normal individuals.

^dχ² values with degrees of freedom in parentheses were obtained using Pearson's method.

^eP-values were corrected by multiplying the number of microsatellite alleles observed for each locus.